SMTL ID : 4wxs.1

Crystal Structure of the E396D SNP Variant of the Myocilin Olfactomedin Domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.153, N.201, A.202, I.250, D.251 Ligands: NA.7 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.153, A:A.202, A:I.250, A:D.251, H2O.6

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 9 residues within 4Å: Chain A: W.146, A.200, S.214, T.216, S.217, N.242, K.245, Y.246, S.247 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.214, A:S.214, A:N.242, A:K.245, A:S.247 GOL.3: 11 residues within 4Å: Chain A: M.44, R.45, P.47, V.101, V.102, Y.103, V.156, D.251, Y.252, N.253, F.260 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.45, A:V.102, A:D.251, A:D.251, A:N.253 Water bridges: A:Y.252 GOL.4: 5 residues within 4Å: Chain A: K.87, V.88, H.89, I.90, E.125 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.87, A:K.87, A:I.90, A:E.125 Water bridges: A:V.88

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 2 residues within 4Å: Chain A: W.23, K.273 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.273

1 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)

P6G.6: 8 residues within 4Å: Chain A: P.47, K.48, Y.103, D.157, E.158, A.159, G.160, P.254 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.103 Water bridges: A:K.48, A:E.158

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 7 residues within 4Å: Chain A: G.99, A.100, V.101, D.153, L.154, D.251 Ligands: CA.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.251

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Donegan, R.K. et al., Structural basis for misfolding in myocilin-associated glaucoma. Hum.Mol.Genet. (2015)

Release Date

2015-04-01

Peptides

Myocilin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Myocilin

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